bowtie2: add in2p3 config

src/nf_modules/bowtie2/indexing.config

@@ -33,4 +33,19 @@ profiles {
       }
     }
   }
+  ccin2p3 {
+    process{
+      withName: index_fasta {
+        beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/bowtie2/2.3.4.1/:/usr/bin:$PATH"
+        scratch = true
+        stageInMode = "copy"
+        stageOutMode = "rsync"
+        executor = "sge"
+        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
+        cpus = 1
+        memory = "10GB"
+        time = "24h"
+      }
+    }
+  }
 }

src/nf_modules/bowtie2/mapping_paired.config

@@ -33,4 +33,19 @@ profiles {
       }
     }
   }
+  ccin2p3 {
+    process{
+      withName: mapping_fastq {
+        beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/bowtie2/2.3.4.1/:/usr/bin:$PATH"
+        scratch = true
+        stageInMode = "copy"
+        stageOutMode = "rsync"
+        executor = "sge"
+        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
+        cpus = 1
+        memory = "10GB"
+        time = "24h"
+      }
+    }
+  }
 }

src/nf_modules/bowtie2/mapping_single.config

@@ -33,4 +33,19 @@ profiles {
       }
     }
   }
+  ccin2p3 {
+    process{
+      withName: mapping_fastq {
+        beforeScript = "PATH=/sps/lbmc/common/nextflow/src/singularity_modules/bowtie2/2.3.4.1/:/usr/bin:$PATH"
+        scratch = true
+        stageInMode = "copy"
+        stageOutMode = "rsync"
+        executor = "sge"
+        clusterOptions = "-P P_lbmc -l os=cl7 -l sps=1 -r n"
+        cpus = 1
+        memory = "10GB"
+        time = "24h"
+      }
+    }
+  }
 }